YRC Public Data Repository - Protein Structure Prediction

Protein:	RSC8
Organism:	Saccharomyces cerevisiae
Length:	557 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for RSC8.

Description	E-value	Query Range	Subject Range
RSC8 - Component of the RSC chromatin remodeling complex; essential for viability and mitotic growth; homol... RSC8_YEAST - Chromatin structure-remodeling complex protein RSC8 OS=Saccharomyces cerevisiae (strain ATCC 204508 ...	0.0	[1..557]	[1..557]
ssr2 - SWI /SNF and RSC complex subunit Ssr2 SSR2_SCHPO - SWI/SNF and RSC complexes subunit ssr2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ssr...	0.0	[66..488]	[4..451]
gi\|32880191, gi\|... - gi\|32880191\|gb\|AAP88926.1\| SWI/SNF related, matrix associated, actin dependent regulator of chromati... gi\|60654775 - gi\|60654775\|gb\|AAX31952.1\| SWI/SNF related matrix associated actin-dependent regulator of chromatin ...	0.0	[2..438]	[337..759]
mor-PA - The gene moira is referred to in FlyBase by the symbol Dmel\mor (CG18740, FBgn0002783). It is a prot...	7.0E-87	[2..397]	[342..742]
SWI3D_ARATH - SWI/SNF complex subunit SWI3D OS=Arabidopsis thaliana GN=SWI3D PE=1 SV=3	2.0E-85	[9..463]	[62..506]
gi\|6678027, gi\|1... - pir\|\|T30967 transcription activator SRG3 - mouse, gi\|6678027\|ref\|NP_033237.1\| SWI/SNF related, matr...	2.0E-73	[2..254]	[362..619]

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Predicted Domain #1

Region A:
Residues: [1-177]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDTEKDKDV PMVDSHEATE EPPTTSTNTP SFPHLAQEQA KEESATLGAE VAHKKINYEQ  60
   61 EAQKLEEKAL RFLAKQTHPV IIPSFASWFD ISKIHEIEKR SNPDFFNDSS RFKTPKAYKD 120
  121 TRNFIINTYR LSPYEYLTIT AVRRNVAMDV ASIVKIHAFL EKWGLINYQI DPRTKPS

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [178-247]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LIGPSFTGHF QVVLDTPQGL KPFLPENVIK QEVEGGDGAE PQVKKEFPVN LTIKKNVYDS  60
   61 AQDFNALQDE

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [248-304]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SRNSRQIHKV YICHTCGNES INVRYHNLRA RDTNLCSRCF QEGHFGANFQ SSDFIRL

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	21.853872
Match:	PF00569
Description:	Zinc finger, ZZ type

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted functions:

Term	Confidence	Notes
binding	2.78710909602478	bayes_pls_golite062009
transcription regulator activity	2.72498741013971	bayes_pls_golite062009
small conjugating protein ligase activity	2.40569731991064	bayes_pls_golite062009
nucleic acid binding	2.32387297115017	bayes_pls_golite062009
ligase activity	2.30828657077565	bayes_pls_golite062009
ubiquitin-protein ligase activity	2.29312770004164	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	2.11206038007886	bayes_pls_golite062009
DNA binding	2.00904221080834	bayes_pls_golite062009
protein binding	1.5975811408548	bayes_pls_golite062009
acid-amino acid ligase activity	1.3853719864144	bayes_pls_golite062009
transcription factor activity	1.22579085356684	bayes_pls_golite062009
transcription factor binding	1.11842175076436	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.90321253993065	bayes_pls_golite062009
transcription repressor activity	0.350170315296021	bayes_pls_golite062009
transcription coactivator activity	0.255669498391574	bayes_pls_golite062009
transcription cofactor activity	0.233838999434784	bayes_pls_golite062009
catalytic activity	0.14112008370434	bayes_pls_golite062009
transcription activator activity	0.126093965701234	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	0.024993043379745	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [305-358]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ENNGNSVKKN WSDQEMLLLL EGIEMYEDQW EKIADHVGGH KRVEDCIEKF LSLP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2.30103
Match:	1h8aC_
Description:	v-Myb
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [359-431]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IEDNYIREVV GSTLNGKGGD SRDGSVSGSK LMECVNDAVQ TLLQGDDKLG KVSDKSREIS  60
   61 EKYIEESQAI IQE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	7.0
Match:	1dg3A_
Description:	Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain; Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [432-557]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LVKLTMEKLE SKFTKLCDLE TQLEMEKLKY VKESEKMLND RLSLSKQILD LNKSLEELNV  60
   61 SKKLVLISEQ VDSGIQLVEK DQEGDDEDGN TATGHGVKRV GKEGEEVGEG DSIAKLQPQV 120
  121 YKPWSL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	7.0
Match:	1dg3A_
Description:	Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain; Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
Matching Structure (courtesy of the PDB):

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: